Sequence
atgc intronic sequence ATGC exonic sequence...tcggcttctcttgttcccatttgatatagttttgcctcttgtctgtaaaaaactccttgcaaatttatccatgtttaattttgcttatgccatacaacagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCGAAGTCATGGTTGCTGGTCTCCTCTGCTTTATGTGGGCAATGCTCACAGCATTAGGCTTGTCAAATCT
Basic information
species | Glycine max |
transcript | GLYMA12G09060.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G09060.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G095611_T03 (Zea mays), 3'ss of exon 8
-----tcggct-tctcttgttcccatttgatatagttttgcctcttgtctgtaaaaaactccttgcaaatttatccatgtttaattttgcttatg-ccatacaacagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCGAAGTCATGGTTGCTGGTCTCCTCTGCTTTATGTGGGCAATGCTCACAGCATTAGGCTTGTCAAATCT
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gtaagaaaactattttgcattttcatttcagtgaaaaaattctcatg-ctgtgagaaaaggtaatcaaaggttcttgcttatcactgttattatgactcttttgtagGAAAAGTCGGTGCATTCATTGCTTCTATTCCTGATGTTATGGTTGCTGCTCTCCTTTGCTTCATGTGGGCTATGCTCTGTGCTCTTGGCTTGTCCAATCT
upper sequence: GLYMA12G09060.1 (Glycine max), 3'ss of exon 8
lower sequence: AT2G27810.3 (Arabidopsis thaliana), 3'ss of exon 8
tcggcttctcttgttcccatttgatat-agttttgcctcttgtctgtaaaaaactccttgcaaatttatccatgtttaattttgcttatgccatacaacagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCGAAGTCATGGTTGCTGGTCTCCTCTGCTTTATGTGGGCAATGCTCACAGCATTAGGCTTGTCAAATCT
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acaagtaactatacatcaatagcatctgaaaattagctcaactgtacaacaggtaccattttttactctctttgactaaaacagtttttgatgtcct-cagGTAAGGTTGGAGGGTTTCTCGCATCAATTCCGCAAGTCATGGTTGCTTCTCTTCTGTGCTTCATGTGGGCAATGTTTACGGCTTTAGGTCTTTCCAACTT
upper sequence: GLYMA12G09060.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0061g01310.t01 (Vitis vinifera), 3'ss of exon 8
tcggcttctcttgttcccattt-gatatagttttgcct-cttgtctgtaaaaaactccttgcaaatttatccatgtttaattttgcttatgccataca-acagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCGAAGTCATGGTTGCTGGTCTCCTCTGCTTTATGTGGGCAATGCTCACAGCATTAGGCTTGTCAAATCT
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---cctttcattgacttcataaaggtatggaggtctctacttctctgctatcctttaatttattgcccttcaaggcctaatctcatttcaatcatgttcacagGTAAAGTTGGAGGGTTTATTGCTTCAATTCCTGAAGTCATGGTTGCTGCTCTCCTGTGCTTCATGTGGGCAATGCTTGCAGCATTGGGGTTGTCAAATTTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|6341754|gb|AW164640.1|AW164640EST: TGCTTTCTGATAGTGTTGTCTCTTATAG GTAAGGTTGGAGGATTCATTGCTTCAATTCCCGAAGTCATGGTTGCTGGTC
genomic: TGCTTTCTGATAGTGTTGTCTCTTATAGgtaagtgtct ... catacaacagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCGAAGTCATGGTTGCTGGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaaaaactccttgcaaatttatccatgtttaattttgcttatgccatacaacagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCGAAGTCATGGTTGCTGGTCTCCTCTGCTTTATGTGGGCAATGCTCACAGCATTAGGCTTGTCAAATCT
gtttaat putative branch site (score: 4)
aaatttatccatgttt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcggcttctcttgttcccatttgatatagttttgcctcttgtctgtaaaaaactccttgcaaatttatccatgtttaattttgcttatgccatacaacagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCGAAGTCATGGTTGCTGGTCTCCTCTGCTTTATGTGGGCAATGCTCACAGCATTAGGCTTGTCAAATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- -gcttctc
- - - - - -tgttccc
- - - - - - - - - - - - - - - - tgcctct
- - - - - - - - - - - - - - - - - - - - - - -taaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttatg